A mathematical model of protein degradation by the proteasome

scientific article published on 21 January 2005

A mathematical model of protein degradation by the proteasome is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1529/BIOPHYSJ.104.049221
P932PMC publication ID1305341
P698PubMed publication ID15665121
P5875ResearchGate publication ID8066749

P50authorFabio LucianiQ37829037
Michele MishtoQ41050022
P2093author name stringCan Keşmir
Michal Or-Guil
Rob J de Boer
P2860cites work26S proteasomes and immunoproteasomes produce mainly N-extended versions of an antigenic peptideQ24535312
Structural basis for the activation of 20S proteasomes by 11S regulatorsQ27628418
Crystal structure of the 20S proteasome from the archaeon T. acidophilum at 3.4 A resolutionQ27730197
Structure of 20S proteasome from yeast at 2.4 A resolutionQ27735081
The axial channel of the proteasome core particle is gated by the Rpt2 ATPase and controls both substrate entry and product releaseQ27933726
The active sites of the eukaryotic 20 S proteasome and their involvement in subunit precursor processingQ27939678
Pathway for degradation of peptides generated by proteasomes: a key role for thimet oligopeptidase and other metallopeptidasesQ28278713
Discrete cleavage motifs of constitutive and immunoproteasomes revealed by quantitative analysis of cleavage productsQ30685494
Why does threonine, and not serine, function as the active site nucleophile in proteasomes?Q30870481
Cleavage motifs of the yeast 20S proteasome beta subunits deduced from digests of enolase 1.Q32000515
The proteasome, a novel protease regulated by multiple mechanismsQ33700949
The proteasome activator 11 S REG (PA28) and class I antigen presentationQ33796158
Getting in and out of the proteasomeQ33975540
Properties of the hybrid form of the 26S proteasome containing both 19S and PA28 complexes.Q34088438
Not such a dismal science: the economics of protein synthesis, folding, degradation and antigen processingQ34286224
Proteasome from Thermoplasma acidophilum: a threonine proteaseQ34309062
A major role for TPPII in trimming proteasomal degradation products for MHC class I antigen presentation.Q34313503
Substrate access and processing by the 20S proteasome core particleQ35097624
Making sense of mass destruction: quantitating MHC class I antigen presentationQ35597106
Generation of major histocompatibility complex class I antigens: functional interplay between proteasomes and TPPII.Q35821221
Efficient generation of a hepatitis B virus cytotoxic T lymphocyte epitope requires the structural features of immunoproteasomesQ36375899
Endoproteolytic activity of the proteasomeQ36450745
A role for the proteasome regulator PA28alpha in antigen presentationQ38357921
A kinetic model of vertebrate 20S proteasome accounting for the generation of major proteolytic fragments from oligomeric peptide substratesQ40169547
Quantitative analysis of prion-protein degradation by constitutive and immuno-20S proteasomes indicates differences correlated with disease susceptibilityQ40602088
Kinetic evidences for facilitation of peptide channelling by the proteasome activator PA28.Q40851962
Differential influence on cytotoxic T lymphocyte epitope presentation by controlled expression of either proteasome immunosubunits or PA28Q40859882
Substrate binding and sequence preference of the proteasome revealed by active-site-directed affinity probesQ41027912
Two-substrate association with the 20S proteasome at single-molecule levelQ41062674
Proteasome-cytochrome c interactions: a model system for investigation of proteasome host-guest interactionsQ43033893
Proteins are unfolded on the surface of the ATPase ring before transport into the proteasomeQ43846790
Binding of hydrophobic peptides to several non-catalytic sites promotes peptide hydrolysis by all active sites of 20 S proteasomes. Evidence for peptide-induced channel opening in the alpha-ringsQ43943338
Prediction of proteasome cleavage motifs by neural networksQ43976304
Assessment of proteasomal cleavage probabilities from kinetic analysis of time-dependent product formationQ44021101
Concurrent translocation of multiple polypeptide chains through the proteasomal degradation channelQ44038790
Substrate size selectivity of 20S proteasomes: analysis with variable-sized synthetic substratesQ44121715
Proteasome-mediated degradation of tau proteins occurs independently of the chymotrypsin-like activity by a nonprocessive pathwayQ44251448
Bioinformatic analysis of functional differences between the immunoproteasome and the constitutive proteasomeQ44573284
Proteasome degradation: enter the substrateQ44628364
Cleaving proteins for the immune systemQ44757947
Proteasomes begin ornithine decarboxylase digestion at the C terminusQ44797041
Regulation of the peptidylglutamyl-peptide hydrolyzing activity of the pituitary multicatalytic proteinase complexQ46776563
Evidence that the nature of amino acid residues in the P3 position directs substrates to distinct catalytic sites of the pituitary multicatalytic proteinase complex (proteasome).Q48120291
Components of the bovine pituitary multicatalytic proteinase complex (proteasome) cleaving bonds after hydrophobic residuesQ48151424
Bovine spleen multicatalytic proteinase complex (proteasome). Replacement of X, Y, and Z subunits by LMP7, LMP2, and MECL1 and changes in properties and specificityQ48708926
The human 26 S and 20 S proteasomes generate overlapping but different sets of peptide fragments from a model protein substrate.Q51081014
Kinetic characterization of the chymotryptic activity of the 20S proteasome.Q52306880
Catalytic Properties of 26 S and 20 S Proteasomes and Radiolabeling of MB1, LMP7, and C7 Subunits Associated with Trypsin-like and Chymotrypsin-like ActivitiesQ61941012
Peptidylglutamyl-peptide hydrolase activity of the multicatalytic proteinase complex: evidence for a new high-affinity site, analysis of cooperative kinetics, and the effect of manganese ionsQ68099962
Coordinated dual cleavages induced by the proteasome regulator PA28 lead to dominant MHC ligandsQ71254579
Nucleotidase activities of the 26 S proteasome and its regulatory complexQ71859921
Processive degradation of proteins and other catalytic properties of the proteasome from Thermoplasma acidophilumQ71985039
Lysozyme degradation by the bovine multicatalytic proteinase complex (proteasome): evidence for a nonprocessive mode of degradationQ73141722
Characterization of recombinant REGalpha, REGbeta, and REGgamma proteasome activatorsQ73770368
Evidence for the existence of a non-catalytic modifier site of peptide hydrolysis by the 20 S proteasomeQ73778113
Range of sizes of peptide products generated during degradation of different proteins by archaeal proteasomesQ74088744
Decelerated degradation of short peptides by the 20S proteasomeQ77317960
High-resolution AFM-imaging and mechanistic analysis of the 20 S proteasomeQ77753783
The sizes of peptides generated from protein by mammalian 26 and 20 S proteasomes. Implications for understanding the degradative mechanism and antigen presentationQ77911981
P433issue4
P407language of work or nameEnglishQ1860
P921main subjectmathematical modelQ486902
P304page(s)2422-2432
P577publication date2005-01-21
P1433published inBiophysical JournalQ2032955
P1476titleA mathematical model of protein degradation by the proteasome
P478volume88

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cites work (P2860)
Q5074099920S proteasomes have the potential to keep substrates in store for continual degradation.
Q48588098A structural model of 20S immunoproteasomes: effect of LMP2 codon 60 polymorphism on expression, activity, intracellular localisation and insight into the regulatory mechanisms
Q35603112A systems view of the protein expression process
Q42162926Crystallization and preliminary X-ray analysis of the Thermoplasma acidophilum 20S proteasome in complex with protein substrates
Q38828129Degradation of oxidized proteins by the proteasome: Distinguishing between the 20S, 26S, and immunoproteasome proteolytic pathways.
Q42122935Force spectroscopy of substrate molecules en route to the proteasome's active sites
Q33912642Modelling proteasome and proteasome regulator activities.
Q39234159Novel Proteasome Inhibitors and Histone Deacetylase Inhibitors: Progress in Myeloma Therapeutics
Q42019078Optimal length transportation hypothesis to model proteasome product size distribution
Q38202977Proteasome inhibitors - molecular basis and current perspectives in multiple myeloma
Q38667315Proteasome properties of hemocytes differ between the whiteleg shrimp Penaeus vannamei and the brown shrimp Crangon crangon (Crustacea, Decapoda).
Q41189449Proteostasis, oxidative stress and aging
Q33627497The 20S proteasome splicing activity discovered by SpliceMet
Q64069427Untangling Extracellular Proteasome-Osteopontin Circuit Dynamics in Multiple Sclerosis

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